MetCirc
Bioc currentNavigating mass spectral similarity in high-resolution MS/MS metabolomics data metabolomics data
Release Lineage
Entered 3.4 · Oct 18, 2016
Current · Requires R 4.6
Description
MetCirc comprises a workflow to interactively explore high-resolution MS/MS metabolomics data. MetCirc uses the Spectra object infrastructure defined in the package Spectra that stores MS/MS spectra. MetCirc offers functionality to calculate similarity between precursors based on the normalised dot product, neutral losses or user-defined functions and visualise similarities in a circular layout. Within the interactive framework the user can annotate MS/MS features based on their similarity to (known) related MS/MS features.
None published for Bioconductor
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
23 15 exported
Complexity
5.6 avg / 39 max
Call network
23 nodes / 27 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
5,341
Files
64
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
15
Internal functions
8
Recent export changes
Testing
Has tests
Yes
Test-to-code ratio
0.32
testthat edition
–
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
0
Dep constraint coverage
100%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.4
System requirements
–
C++ standard
–
License
GPL (>= 3)
License flags
SPDX valid, OSI approved
History
Versions
20
First release
2016-12-20
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
100%
Dep drift
10
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Help pages
- 31
- Examples that run
- 96%22 run in a plain check · 1 never run
- Exported functions with examples
- 100%
- Documented parameters
- 99%
- Return-value docs
- 100%
- Help pages citing references
- 0%
Repository practices
Checks read the Bioconductor git repository (git.bioconductor.org), branch RELEASE_3_23.
2 practices detected in the Bioconductor git repository
Datasets
| Name | Class | Size | Also in |
|---|---|---|---|
| compartmentTissue | data.frame | 259 × 10 | No other package |
| convertExampleDF | data.frame | 100 × 11 | No other package |
| msp2spectra | data.frame | 1,024 × 2 | No other package |
| sd01_outputXCMS | data.frame | 1,044 × 195 | No other package |
| sd02_deconvoluted | data.frame | 4,743 × 4 | No other package |
| similarityMat | matrix | 259 × 259 | No other package |
| sps_tissue | – | – | – |
| tissue | data.frame | 37,863 × 7 | No other package |
Topics
People
- Thomas Naake author maintainer
- Emmanuel Gaquerel author
- Johannes Rainer contributor
Cite
Cite this package
Run in R for the authors' entry:
citation("MetCirc")The package provides a citation file, so citation() returns the authors' own entry.
Cite the R Observatory
For a number measured here: a download total, a coverage figure, an archival date.
From data release v2026-10-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.